[Freesurfer] Move mri_super_synth output in MNI space

External Email - Use Caution

Hi FreeSurfer Experts, I have successfully run mri_super_synth and obtained the following outputs: mni_deformation.mgz, mni_affine.txt, and segmentation.mgz. I am now trying to warp the segmentation to MNI space. I converted the .txt affine matrix to .lta format, but when I run mri_vol2vol, the output is not in the correct mni space: mri_vol2vol --mov ribbon.mgz \ --targ $FSLDIR/data/standard/MNI152_T1_1mm.nii.gz \ --m3z /path/to/mni_deformation.mgz \ --lta ./mni_affine.lta \ --o seg_mni.nii.gz \ --interp trilinear \ --noDefM3zPath

Thanks, Maurilio Genovese